Normalization of intensities in a set of maps using robust regression.

potential predecessor tools	$\longrightarrow$ ConsensusMapNormalizer $\longrightarrow$	potential successor tools
FeatureLinkerUnlabeled (or another feature grouping tool)		ProteinQuantifier
		TextExporter

The tool normalizes the intensities of a set of maps (consensusXML file). The following normalization algorithms are available:

Robust regression: Maps are normalized pair-wise relative to the map with the most features. Given two maps, peptide featues are classified as non-outliers (ratio_threshold < intensity ratio < 1/ratio_threshold) or outliers. From the non-outliers an average intensity ratio is calculated and used for normalization.
Median correction: The median of all maps is set to the median of the map with the most features.
Quantile normalization: Performs an exact quantile normalization if the number of features is equal across all maps. Otherwise, an approximate quantile normalization using resampling is applied.

The command line parameters of this tool are:

INI file documentation of this tool: